Atlas of Genetics and Cytogenetics in Oncology and Haematology

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   
X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

VSTM2B (V-set and transmembrane domain containing 2B)

Identity

Other alias-
HGNC (Hugo) VSTM2B
LocusID (NCBI) 342865
Atlas_Id 75651
Location 19q12  [Link to chromosome band 19q12]
Location_base_pair Starts at 29526584 and ends at 29564319 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)		HGSNAT (8p11.21) / VSTM2B (19q12)RHPN2 (19q13.11) / VSTM2B (19q12)URI1 (19q12) / VSTM2B (19q12)
RHPN2 VSTM2BC19orf2 VSTM2BHGSNAT VSTM2B

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

External links

Nomenclature
HGNC (Hugo)VSTM2B   33595
Cards
Entrez_Gene (NCBI)VSTM2B  342865  V-set and transmembrane domain containing 2B
Aliases
GeneCards (Weizmann)VSTM2B
Ensembl hg19 (Hinxton)ENSG00000187135 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000187135 [Gene_View]  chr19:29526584-29564319 [Contig_View]  VSTM2B [Vega]
ICGC DataPortalENSG00000187135
TCGA cBioPortalVSTM2B
AceView (NCBI)VSTM2B
Genatlas (Paris)VSTM2B
WikiGenes342865
SOURCE (Princeton)VSTM2B
Genetics Home Reference (NIH)VSTM2B
Genomic and cartography
GoldenPath hg38 (UCSC)VSTM2B  -     chr19:29526584-29564319 +  19q12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)VSTM2B  -     19q12   [Description]    (hg19-Feb_2009)
EnsemblVSTM2B - 19q12 [CytoView hg19]  VSTM2B - 19q12 [CytoView hg38]
Mapping of homologs : NCBIVSTM2B [Mapview hg19]  VSTM2B [Mapview hg38]
Gene and transcription
Genbank (Entrez)-
RefSeq transcript (Entrez)NM_001146339
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)VSTM2B
Cluster EST : UnigeneHs.451618 [ NCBI ]
CGAP (NCI)Hs.451618
Alternative Splicing GalleryENSG00000187135
Gene ExpressionVSTM2B [ NCBI-GEO ]   VSTM2B [ EBI - ARRAY_EXPRESS ]   VSTM2B [ SEEK ]   VSTM2B [ MEM ]
Gene Expression Viewer (FireBrowse)VSTM2B [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)342865
GTEX Portal (Tissue expression)VSTM2B
Protein : pattern, domain, 3D structure
UniProt/SwissProtA6NLU5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtA6NLU5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProA6NLU5
Splice isoforms : SwissVarA6NLU5
PhosPhoSitePlusA6NLU5
Domaine pattern : Prosite (Expaxy)IG_LIKE (PS50835)   
Domains : Interpro (EBI)Ig-like_dom    Ig-like_fold    Ig_sub    Ig_V-set   
Domain families : Pfam (Sanger)V-set (PF07686)   
Domain families : Pfam (NCBI)pfam07686   
Domain families : Smart (EMBL)IG (SM00409)  
Conserved Domain (NCBI)VSTM2B
DMDM Disease mutations342865
Blocks (Seattle)VSTM2B
SuperfamilyA6NLU5
Human Protein AtlasENSG00000187135
Peptide AtlasA6NLU5
IPIIPI00247243   
Protein Interaction databases
DIP (DOE-UCLA)A6NLU5
IntAct (EBI)A6NLU5
FunCoupENSG00000187135
BioGRIDVSTM2B
STRING (EMBL)VSTM2B
ZODIACVSTM2B
Ontologies - Pathways
QuickGOA6NLU5
Ontology : AmiGOplasma membrane  integral component of membrane  
Ontology : EGO-EBIplasma membrane  integral component of membrane  
NDEx NetworkVSTM2B
Atlas of Cancer Signalling NetworkVSTM2B
Wikipedia pathwaysVSTM2B
Orthology - Evolution
OrthoDB342865
GeneTree (enSembl)ENSG00000187135
Phylogenetic Trees/Animal Genes : TreeFamVSTM2B
HOVERGENA6NLU5
HOGENOMA6NLU5
Homologs : HomoloGeneVSTM2B
Homology/Alignments : Family Browser (UCSC)VSTM2B
Gene fusions - Rearrangements
Fusion: TCGARHPN2 VSTM2B
Fusion: TCGAC19orf2 VSTM2B
Fusion: TCGAHGSNAT VSTM2B
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerVSTM2B [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)VSTM2B
dbVarVSTM2B
ClinVarVSTM2B
1000_GenomesVSTM2B 
Exome Variant ServerVSTM2B
ExAC (Exome Aggregation Consortium)VSTM2B (select the gene name)
Genetic variants : HAPMAP342865
Genomic Variants (DGV)VSTM2B [DGVbeta]
DECIPHERVSTM2B [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisVSTM2B 
Mutations
ICGC Data PortalVSTM2B 
TCGA Data PortalVSTM2B 
Broad Tumor PortalVSTM2B
OASIS PortalVSTM2B [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICVSTM2B  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDVSTM2B
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch VSTM2B
DgiDB (Drug Gene Interaction Database)VSTM2B
DoCM (Curated mutations)VSTM2B (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)VSTM2B (select a term)
intoGenVSTM2B
Cancer3DVSTM2B(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenVSTM2B
Genetic Testing Registry VSTM2B
NextProtA6NLU5 [Medical]
TSGene342865
GENETestsVSTM2B
Target ValidationVSTM2B
Huge Navigator VSTM2B [HugePedia]
snp3D : Map Gene to Disease342865
BioCentury BCIQVSTM2B
ClinGenVSTM2B
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD342865
Chemical/Pharm GKB GenePA162408890
Clinical trialVSTM2B
Miscellaneous
canSAR (ICR)VSTM2B (select the gene name)
Probes
Litterature
PubMed4 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineVSTM2B
EVEXVSTM2B
GoPubMedVSTM2B
iHOPVSTM2B
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed May 31 15:48:43 CEST 2017
Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.